FTICR Van krevalin diagrams:

click to open

FTICR Common vs unique peaks by treatment:

click to open

Class -2 -6
aliphatic 465 230
aromatic 29 33
condensed aromatic 16 12
unsaturated/lignin 103 166

Class Pre 2 4 6 8 10
aliphatic 55 57 17 10 14 11
unsaturated/lignin 39 11 8 4 10 2
aromatic 14 2 3 1 2 NA
condensed aromatic 2 4 NA NA 4 NA

Class -2_Pre -6_Pre -2_2 -6_2 -2_4 -6_4 -2_6 -6_6 -2_8 -6_8 -2_10 -6_10
aliphatic 38 10 54 3 17 NA 10 NA 13 1 11 NA
unsaturated/lignin 25 8 9 2 7 1 3 1 8 2 NA 2
aromatic 11 3 2 NA 1 2 NA 1 2 NA NA NA
condensed aromatic 2 NA 4 NA NA NA NA NA 4 NA NA NA

FTICR Permanova results and PCAs:

click to open

Permanova results:

Permanova results: All
Df SumOfSqs R2 F Pr(>F)
pre 1 0.2906302 0.0458303 9.8161099 0.005
inc 5 0.0082554 0.0013018 0.0557657 0.998
pre:inc 5 0.0322426 0.0050844 0.2178001 0.956
Residual 203 6.0103176 0.9477835 NA NA
Total 214 6.3414458 1.0000000 NA NA
Permanova results: Polar only
Df SumOfSqs R2 F Pr(>F)
pre 1 0.0001709 0.0163378 4.023551 0.024
inc 5 0.0046123 0.4408260 21.712725 0.001
pre:inc 5 0.0016011 0.1530252 7.537202 0.001
Residual 96 0.0040785 0.3898110 NA NA
Total 107 0.0104629 1.0000000 NA NA
Permanova results: Non-Polar only
Df SumOfSqs R2 F Pr(>F)
pre 1 0.0066753 0.1654780 24.5398933 0.001
inc 5 0.0066012 0.1636400 4.8534640 0.002
pre:inc 5 0.0012213 0.0302756 0.8979562 0.479
Residual 95 0.0258419 0.6406064 NA NA
Total 106 0.0403397 1.0000000 NA NA

PCA results:

Session Info

Session Info

Date run: 2023-05-03

## R version 4.2.3 (2023-03-15 ucrt)
## Platform: x86_64-w64-mingw32/x64 (64-bit)
## Running under: Windows 10 x64 (build 19045)
## 
## Matrix products: default
## 
## locale:
## [1] LC_COLLATE=English_United States.utf8 
## [2] LC_CTYPE=English_United States.utf8   
## [3] LC_MONETARY=English_United States.utf8
## [4] LC_NUMERIC=C                          
## [5] LC_TIME=English_United States.utf8    
## 
## attached base packages:
## [1] grid      stats     graphics  grDevices utils     datasets  methods  
## [8] base     
## 
## other attached packages:
##  [1] pmartR_2.3.0      agricolae_1.3-5   knitr_1.42        nlme_3.1-162     
##  [5] cowplot_1.1.1     ggpubr_0.6.0      janitor_2.2.0     pracma_2.4.2     
##  [9] reshape2_1.4.4    ggbiplot_0.55     scales_1.2.1      plyr_1.8.8       
## [13] vegan_2.6-4       lattice_0.20-45   permute_0.9-7     lubridate_1.9.2  
## [17] forcats_1.0.0     stringr_1.5.0     dplyr_1.1.1       purrr_1.0.1      
## [21] readr_2.1.4       tidyr_1.3.0       tibble_3.2.1      ggplot2_3.4.2    
## [25] tidyverse_2.0.0   tarchetypes_0.7.5 targets_0.14.3   
## 
## loaded via a namespace (and not attached):
##  [1] colorspace_2.1-0   ggsignif_0.6.4     ellipsis_0.3.2     snakecase_0.11.0  
##  [5] fs_1.6.1           rstudioapi_0.14    listenv_0.9.0      furrr_0.3.1       
##  [9] farver_2.1.1       fansi_1.0.4        codetools_0.2-19   splines_4.2.3     
## [13] cachem_1.0.7       jsonlite_1.8.4     broom_1.0.4        cluster_2.1.4     
## [17] shiny_1.7.4        compiler_4.2.3     backports_1.4.1    Matrix_1.5-3      
## [21] fastmap_1.1.1      cli_3.6.0          later_1.3.0        htmltools_0.5.4   
## [25] tools_4.2.3        igraph_1.4.1       gtable_0.3.3       glue_1.6.2        
## [29] Rcpp_1.0.10        carData_3.0-5      jquerylib_0.1.4    vctrs_0.6.0       
## [33] iterators_1.0.14   xfun_0.38          globals_0.16.2     ps_1.7.2          
## [37] timechange_0.2.0   mime_0.12          miniUI_0.1.1.1     lifecycle_1.0.3   
## [41] rstatix_0.7.2      future_1.32.0      MASS_7.3-58.2      hms_1.1.2         
## [45] promises_1.2.0.1   parallel_4.2.3     yaml_2.3.7         sass_0.4.5        
## [49] labelled_2.10.0    ggExtra_0.10.0     stringi_1.7.12     highr_0.10        
## [53] klaR_1.7-1         AlgDesign_1.2.1    foreach_1.5.2      PNWColors_0.1.0   
## [57] rlang_1.1.0        pkgconfig_2.0.3    evaluate_0.20      labeling_0.4.2    
## [61] processx_3.8.0     tidyselect_1.2.0   parallelly_1.35.0  magrittr_2.0.3    
## [65] R6_2.5.1           generics_0.1.3     base64url_1.4      combinat_0.0-8    
## [69] pillar_1.9.0       haven_2.5.2        withr_2.5.0        mgcv_1.8-42       
## [73] abind_1.4-5        car_3.1-1          questionr_0.7.8    utf8_1.2.3        
## [77] tzdb_0.3.0         rmarkdown_2.21     future.callr_0.8.1 data.table_1.14.8 
## [81] callr_3.7.3        digest_0.6.31      xtable_1.8-4       httpuv_1.6.9      
## [85] munsell_0.5.0      bslib_0.4.2